412 related articles for article (PubMed ID: 33743584)
1. SVExpress: identifying gene features altered recurrently in expression with nearby structural variant breakpoints.
Zhang Y; Chen F; Creighton CJ
BMC Bioinformatics; 2021 Mar; 22(1):135. PubMed ID: 33743584
[TBL] [Abstract][Full Text] [Related]
2. Rearrangement-mediated cis-regulatory alterations in advanced patient tumors reveal interactions with therapy.
Zhang Y; Chen F; Pleasance E; Williamson L; Grisdale CJ; Titmuss E; Laskin J; Jones SJM; Cortes-Ciriano I; Marra MA; Creighton CJ
Cell Rep; 2021 Nov; 37(7):110023. PubMed ID: 34788622
[TBL] [Abstract][Full Text] [Related]
3. A Pan-Cancer Compendium of Genes Deregulated by Somatic Genomic Rearrangement across More Than 1,400 Cases.
Zhang Y; Yang L; Kucherlapati M; Chen F; Hadjipanayis A; Pantazi A; Bristow CA; Lee EA; Mahadeshwar HS; Tang J; Zhang J; Seth S; Lee S; Ren X; Song X; Sun H; Seidman J; Luquette LJ; Xi R; Chin L; Protopopov A; Li W; Park PJ; Kucherlapati R; Creighton CJ
Cell Rep; 2018 Jul; 24(2):515-527. PubMed ID: 29996110
[TBL] [Abstract][Full Text] [Related]
4. nanotatoR: a tool for enhanced annotation of genomic structural variants.
Bhattacharya S; Barseghyan H; Délot EC; Vilain E
BMC Genomics; 2021 Jan; 22(1):10. PubMed ID: 33407088
[TBL] [Abstract][Full Text] [Related]
5. High-coverage whole-genome analysis of 1220 cancers reveals hundreds of genes deregulated by rearrangement-mediated cis-regulatory alterations.
Zhang Y; Chen F; Fonseca NA; He Y; Fujita M; Nakagawa H; Zhang Z; Brazma A; ; ; Creighton CJ;
Nat Commun; 2020 Feb; 11(1):736. PubMed ID: 32024823
[TBL] [Abstract][Full Text] [Related]
6. SV-HotSpot: detection and visualization of hotspots targeted by structural variants associated with gene expression.
Eteleeb AM; Quigley DA; Zhao SG; Pham D; Yang R; Dehm SM; Luo J; Feng FY; Dang HX; Maher CA
Sci Rep; 2020 Sep; 10(1):15890. PubMed ID: 32985524
[TBL] [Abstract][Full Text] [Related]
7. Integrated paired-end enhancer profiling and whole-genome sequencing reveals recurrent
Ooi WF; Nargund AM; Lim KJ; Zhang S; Xing M; Mandoli A; Lim JQ; Ho SWT; Guo Y; Yao X; Lin SJ; Nandi T; Xu C; Ong X; Lee M; Tan AL; Lam YN; Teo JX; Kaneda A; White KP; Lim WK; Rozen SG; Teh BT; Li S; Skanderup AJ; Tan P
Gut; 2020 Jun; 69(6):1039-1052. PubMed ID: 31542774
[TBL] [Abstract][Full Text] [Related]
8. Global impact of somatic structural variation on the DNA methylome of human cancers.
Zhang Y; Yang L; Kucherlapati M; Hadjipanayis A; Pantazi A; Bristow CA; Lee EA; Mahadeshwar HS; Tang J; Zhang J; Seth S; Lee S; Ren X; Song X; Sun H; Seidman J; Luquette LJ; Xi R; Chin L; Protopopov A; Park PJ; Kucherlapati R; Creighton CJ
Genome Biol; 2019 Oct; 20(1):209. PubMed ID: 31610796
[TBL] [Abstract][Full Text] [Related]
9. Global impact of somatic structural variation on the cancer proteome.
Chen F; Zhang Y; Chandrashekar DS; Varambally S; Creighton CJ
Nat Commun; 2023 Sep; 14(1):5637. PubMed ID: 37704602
[TBL] [Abstract][Full Text] [Related]
10. Comprehensive evaluation of structural variation detection algorithms for whole genome sequencing.
Kosugi S; Momozawa Y; Liu X; Terao C; Kubo M; Kamatani Y
Genome Biol; 2019 Jun; 20(1):117. PubMed ID: 31159850
[TBL] [Abstract][Full Text] [Related]
11. Enhancing breakpoint resolution with deep segmentation model: A general refinement method for read-depth based structural variant callers.
Zhang YZ; Imoto S; Miyano S; Yamaguchi R
PLoS Comput Biol; 2021 Oct; 17(10):e1009186. PubMed ID: 34634042
[TBL] [Abstract][Full Text] [Related]
12. Structural variant analysis of a cancer reference cell line sample using multiple sequencing technologies.
Talsania K; Shen TW; Chen X; Jaeger E; Li Z; Chen Z; Chen W; Tran B; Kusko R; Wang L; Pang AWC; Yang Z; Choudhari S; Colgan M; Fang LT; Carroll A; Shetty J; Kriga Y; German O; Smirnova T; Liu T; Li J; Kellman B; Hong K; Hastie AR; Natarajan A; Moshrefi A; Granat A; Truong T; Bombardi R; Mankinen V; Meerzaman D; Mason CE; Collins J; Stahlberg E; Xiao C; Wang C; Xiao W; Zhao Y
Genome Biol; 2022 Dec; 23(1):255. PubMed ID: 36514120
[TBL] [Abstract][Full Text] [Related]
13. Global analysis of somatic structural genomic alterations and their impact on gene expression in diverse human cancers.
Alaei-Mahabadi B; Bhadury J; Karlsson JW; Nilsson JA; Larsson E
Proc Natl Acad Sci U S A; 2016 Nov; 113(48):13768-13773. PubMed ID: 27856756
[TBL] [Abstract][Full Text] [Related]
14. Comparison of structural variant callers for massive whole-genome sequence data.
Joe S; Park JL; Kim J; Kim S; Park JH; Yeo MK; Lee D; Yang JO; Kim SY
BMC Genomics; 2024 Mar; 25(1):318. PubMed ID: 38549092
[TBL] [Abstract][Full Text] [Related]
15. NPSV: A simulation-driven approach to genotyping structural variants in whole-genome sequencing data.
Linderman MD; Paudyal C; Shakeel M; Kelley W; Bashir A; Gelb BD
Gigascience; 2021 Jul; 10(7):. PubMed ID: 34195837
[TBL] [Abstract][Full Text] [Related]
16. Whole-Genome Sequencing Reveals Diverse Models of Structural Variations in Esophageal Squamous Cell Carcinoma.
Cheng C; Zhou Y; Li H; Xiong T; Li S; Bi Y; Kong P; Wang F; Cui H; Li Y; Fang X; Yan T; Li Y; Wang J; Yang B; Zhang L; Jia Z; Song B; Hu X; Yang J; Qiu H; Zhang G; Liu J; Xu E; Shi R; Zhang Y; Liu H; He C; Zhao Z; Qian Y; Rong R; Han Z; Zhang Y; Luo W; Wang J; Peng S; Yang X; Li X; Li L; Fang H; Liu X; Ma L; Chen Y; Guo S; Chen X; Xi Y; Li G; Liang J; Yang X; Guo J; Jia J; Li Q; Cheng X; Zhan Q; Cui Y
Am J Hum Genet; 2016 Feb; 98(2):256-74. PubMed ID: 26833333
[TBL] [Abstract][Full Text] [Related]
17. Germline structural variation globally impacts the cancer transcriptome including disease-relevant genes.
Chen F; Zhang Y; Sedlazeck FJ; Creighton CJ
Cell Rep Med; 2024 Mar; 5(3):101446. PubMed ID: 38442712
[TBL] [Abstract][Full Text] [Related]
18. svpluscnv: analysis and visualization of complex structural variation data.
Lopez G; Egolf LE; Giorgi FM; Diskin SJ; Margolin AA
Bioinformatics; 2021 Jul; 37(13):1912-1914. PubMed ID: 33051644
[TBL] [Abstract][Full Text] [Related]
19. Toward the functional interpretation of somatic structural variations: bulk- and single-cell approaches.
Yi D; Nam JW; Jeong H
Brief Bioinform; 2023 Sep; 24(5):. PubMed ID: 37587831
[TBL] [Abstract][Full Text] [Related]
20. SV-Bay: structural variant detection in cancer genomes using a Bayesian approach with correction for GC-content and read mappability.
Iakovishina D; Janoueix-Lerosey I; Barillot E; Regnier M; Boeva V
Bioinformatics; 2016 Apr; 32(7):984-92. PubMed ID: 26740523
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]